Unknown,Transcriptomics,Genomics,Proteomics

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A reversible light and genotype dependent acquired thermolerance response protects the potato plant from excessive temperature (microarray data set 2).

ABSTRACT: 'Potato is particularly vulnerable to increased temperature, considered to be the most important uncontrollable factor affecting growth and yield. Here we describe an acquired thermotolerance response in potato, whereby treatment at a mildly elevated temperature (''acclimated'') primes the plant for more severe heat stress compared to control (''non-acclimated'') plants. We define the time course for acquiring thermotolerance and demonstrate that light is essential for the process. Physiological, transcriptomic and metabolomic approaches were employed to elucidate potential mechanisms that underpin the acquisition of heat tolerance and indicate a role for cell wall modification, auxin and ethylene signalling, and chromatin remodelling in acclimatory priming. This experiment identifies changes in transcript level were measured over a time course (0, 2, 6, 12 h) during the period of acquisition of thermotolerance following transfer from 18 °C (non-acclimated) to 25 °C (acclimated). Related experiment (E-MTAB-5857) looks to understand the mechanisms by which acclimation results in protection of leaves at extreme temperature; gene expression patterns were determined in leaves from acclimated and non-acclimated plants which were subsequently transferred to 40 °C and compared during a 48 h time course (2, 6, 12, 24 h).'

INSTRUMENT(S): Agilent Scanner G2505B

ORGANISM(S): Solanum tuberosum

SUBMITTER: Pete Hedley

PROVIDER: E-MTAB-5863 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Project description:Detailed information: Rice (*Oryza sativa* L. cv. Nipponbare) is a drought-susceptible species which is well suited for studies of abiotic stress response because of the comprehensive bioinformatics resource available. By withholding water from the entire root system of young rice plants, or half the root system only, it was possible to infer the relative impact of signals arriving from roots growing in wet and dry soil on the shoot proteome. The global proteome of shoots had 685 proteins in common to all three drought treatments but there were major shifts in abundance of individual proteins within 16 functional categories. The dominant changes were analyzed more deeply. First, we investigated transport and cell component organization, where some proteins were up-regulated by drought but many more down-regulated. Proteins involved in protein metabolism were up-regulated in general by drought when they were responsible for protein degradation but those involved in protein synthesis were down-regulated when water was withheld. Stress-related proteins behaved very consistently by increasing in droughted plants but notably some proteins were most abundant when roots of the same plant were growing in both wet and dry soil. This suggests that drought signals are complex interactions and not simply the additive effect of water supply to the roots. Changes in carbohydrate-processing proteins were consistent with the passive accumulation of soluble sugars in shoots under drought, with hydrolysis of sucrose and starch synthesis both enhanced. Data analysis information: The result raw files were converted to mzXML format and processed through the global proteome machine (GPM) software (version 2.1.1) of the X!Tandem algorithm (freely available at http://www.thegpm.org). The 16 gel fractions were processed serially for each experiment and the output files were generated as non-redundant, merged files with protein identifications with log (e) values less than -1, for each individual gel fraction. A protein database compiled from NCBI *O*. *sativa* with 26938 protein sequences (August 2011) was used in GPM to search the tandem mass spectra; the database also included common trypsin and human peptide contaminants. False discovery rates (FDR) were evaluated by searching against a reversed sequence database. Search parameters included MS and MS/MS tolerances of +2 Da and +0.2 Da, carbamidomethylation of cysteine as fixed modifications, oxidation of methionine as variable modifications and tolerance of two missed tryptic cleavages and K/R-P cleavages.

Dataset Information

A reversible light and genotype dependent acquired thermolerance response protects the potato plant from excessive temperature (microarray data set 2).

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